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Solved 1-11, got to 12 and had zero idea what to do. 

Came back several days later and it suddenly clicked, solved all of them in one sitting, ending at 3am because I couldn't put it down.

The only thing that confused me a little was the very last puzzle, with the N15 that I assumed was supposed to be the word completely covered by the line. Were we supposed to actually know what that word/phrase is?

Awesome! Glad you enjoyed it.

You're right about n15 being covered, but there's another way to find it. It's possible you found it without realizing it, because it sorta breaks an implied rule:
[rot13.no] Nygubhtu a15 svgf gur pngrtbel, vg vf ab zber bs n jbeq guna Bgntrqnhtary.

You may want to write down a proper word list for puzzle 12, with the Divider Line and everything.